bioinformatics logo

Compare Groups of Growth Curves

Compare Groups of Growth Curves performs permutation tests of the differences between groups of growth curves. It calculates all pairwise comparisons between two or more groups of growth curves. Accurate p-values can be obtained by setting the number of permutations to some large value. For testing, set the number of permutations to 100, then set it to 10000 for definitive and publishable results.

You can type or copy and paste data from a text document or an Excel spreadsheet.

Data Requirements:
The first row is a heading row.
Each other row of data contains:
In the first column a group indicator (for eg. Strain).
All other columns contain data for individual time points.
Missing data needs to be represented by the 2 letters "NA", without the quotes.

Some Example data is:
Strain     D0      D1      D3      D5      D7      D9      D11
BALB/c     4.01    3.96    2.62    2.59    2.13    1.47    0
BALB/c     4       3.91    3.94    3.81    2.82    1.74    0.98
BALB/c     4.32    4.93    4.15    NA      3.88    1.82    0.93
C57B/6     4.7     3.61    3.61    3.68    3.5     1.43    0
C57B/6     5.33    5.58    4.26    4.55    3.77    2.19    0.95
C57B/6     4.1     4.38    3.42    3.43    2.59    NA      NA
C.lmr1/2   4.57    3.51    3.72    2.55    2.05    0       0
C.lmr1/2   3.91    3.58    2.94    2.87    2.26    1.2     0.97
C.lmr1/2   4.79    3.82    4.21    3.78    2.43    1.75    0
The outout from this example is:
 The number of lines of data processed (excluding the heading line) = 9
 The number of unique groups entered = 3
 The number of time points entered   = 7
 The number of permutations selected = 10000
         Group1    Group2    Stat  P.Value   adj.P.Value
    1    BALB/c  C.lmr1/2   0.603     0.52             1
    2    BALB/c    C57B/6  -0.598     0.64             1
    3  C.lmr1/2    C57B/6   1.203     0.39             1
                               (Your P values may vary slightly)

Enter your data here:

Column data are separated by a tab , space , comma , or any whitespace .
Whitespace implies any number of spaces and/or tabs are allowed between columns.

  Enter the number of permutations - suggest 100 initially, 10000 for definitive results.

                             Display Data Values:

Authors

Method designed by Russell Thompson and Gordon Smyth, Web Interface by Keith Satterley.

Method

This web page uses the compareGrowthCurves function from the Statistical Modeling package, statmod, available from the R Project for Statistical Computing: http://wwww.r-project.org The method is described and used in the following references.

Citation

Elso, C. M., Roberts, L. J., Smyth, G. K., Thomson, R. J., Baldwin, T. M., Foote, S. J., and Handman, E. (2004). Leishmaniasis host response loci (lmr13) modify disease severity through a Th1/Th2-independent pathway. Genes and Immunity 5, 93-100. http://www.nature.com/gene/journal/v5/n2/full/6364042a.html

Baldwin, T., Sakthianandeswaren, A., Curtis, J., Kumar, B., Smyth, G. K., Foote, S., and Handman, E. (2007). Wound healing response is a major contributor to the severity of cutaneous leishmaniasis in the ear model of infection. Parasite Immunology 29, 501-513. http://www.blackwell-synergy.com/doi/abs/10.1111/j.1365-3024.2007.00969.x



Comments/Questions? Contact Keith Satterley.
Last modified: 22 February 2010